Locus 6588

Sequence ID	3L_DroMel_CAF1
Location	17,480,137 – 17,480,256
Length	119
Max. P	0.916852

overview

Window 9

Location	17,480,137 – 17,480,256
Length	119
Sequences	4
Columns	119
Reading direction	forward
Mean pairwise identity	91.74
Mean single sequence MFE	-40.15
Consensus MFE	-34.72
Energy contribution	-35.23
Covariance contribution	0.50
Combinations/Pair	1.16
Mean z-score	-2.00
Structure conservation index	0.86
SVM decision value	1.11
SVM RNA-class probability	0.916852
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17480137 119 + 23771897
AUUGGCAAGAAGUUGGCCAAGGCCGAGGCCCUGGGCGAGGCCGGCGAAGUGGAGGACAGCAUGGAGCUGAUGAAGGAGAUCGAGGAGCUGCGUGCUAAGAAGAUCAAGGCCGAGCACGA
.(((((..((.(((((((...(((.((...)).)))..)))))))............((((((.((((..(((......)))...)))).)))))).......))...)))))...... ( -39.80)
>DroEre_CAF1 729 119 + 1
AUUGGCAAGAAGUUGGCCAAGGCCGAGGCACUCGGCGAGGCCGGCGAAGUGGAGGACAGCAUGGAGCUAAUGAAGGAGAUUGAGGAGCUGCGUGCUAAGAAAAUCAAAGCCGAGCACGA
.(((((.....(((((((...((((((...))))))..)))))))............((((((.((((..(.((.....)).)..)))).))))))............)))))...... ( -45.00)
>DroWil_CAF1 392 119 + 1
AUUGGCAAGAAACUGGCUAAAGCCGAGGCCCUGGGCGAGGCUGGCGAAGUGGAGGACAGCAUGGAGCUGAUGAAGGAGAUUGACGAGUUGCGGGGCAAGAAGACCAAAGCCGAGCAUGA
.(((((......(((((....))).))(((((((((..((((.....)))......((((.....))))..............)..))).))))))............)))))...... ( -32.20)
>DroYak_CAF1 391 119 + 1
AUUGGCAAGAAGUUGGCCAAGGCCGAGGCGCUCGGCGAGGCCGGCGAAGUGGAGGACAGCAUGGAGCUGAUGAAGGAGAUCGAGGAGCUGCGUGCUAAGAAGAUCAAGGCCGAGCACGA
.(((((..((.(((((((...((((((...))))))..)))))))............((((((.((((..(((......)))...)))).)))))).......))...)))))...... ( -43.60)
>consensus
AUUGGCAAGAAGUUGGCCAAGGCCGAGGCCCUCGGCGAGGCCGGCGAAGUGGAGGACAGCAUGGAGCUGAUGAAGGAGAUCGAGGAGCUGCGUGCUAAGAAGAUCAAAGCCGAGCACGA
.(((((.....(((((((...((((((...))))))..)))))))............((((((.((((..(((......)))...)))).))))))............)))))...... (-34.72 = -35.23 +   0.50)

alignment

secondary structure

dotplot

Window 0

Location	17,480,137 – 17,480,256
Length	119
Sequences	4
Columns	119
Reading direction	reverse
Mean pairwise identity	91.74
Mean single sequence MFE	-31.07
Consensus MFE	-24.61
Energy contribution	-25.55
Covariance contribution	0.94
Combinations/Pair	1.15
Mean z-score	-1.85
Structure conservation index	0.79
SVM decision value	0.42
SVM RNA-class probability	0.731238
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17480137 119 - 23771897
UCGUGCUCGGCCUUGAUCUUCUUAGCACGCAGCUCCUCGAUCUCCUUCAUCAGCUCCAUGCUGUCCUCCACUUCGCCGGCCUCGCCCAGGGCCUCGGCCUUGGCCAACUUCUUGCCAAU
..(.((..((((..((((.....(((.....)))....))))........((((.....))))..............))))..(.(((((((....))))))).)........)))... ( -33.20)
>DroEre_CAF1 729 119 - 1
UCGUGCUCGGCUUUGAUUUUCUUAGCACGCAGCUCCUCAAUCUCCUUCAUUAGCUCCAUGCUGUCCUCCACUUCGCCGGCCUCGCCGAGUGCCUCGGCCUUGGCCAACUUCUUGCCAAU
..(.((..(((...........(((((.(.((((.................)))).).)))))...........)))((((..((((((...))))))...))))........)))... ( -32.08)
>DroWil_CAF1 392 119 - 1
UCAUGCUCGGCUUUGGUCUUCUUGCCCCGCAACUCGUCAAUCUCCUUCAUCAGCUCCAUGCUGUCCUCCACUUCGCCAGCCUCGCCCAGGGCCUCGGCUUUAGCCAGUUUCUUGCCAAU
....((..((((((((.(...((((...))))..................((((.....))))....................).))))))))..(((....)))........)).... ( -24.40)
>DroYak_CAF1 391 119 - 1
UCGUGCUCGGCCUUGAUCUUCUUAGCACGCAGCUCCUCGAUCUCCUUCAUCAGCUCCAUGCUGUCCUCCACUUCGCCGGCCUCGCCGAGCGCCUCGGCCUUGGCCAACUUCUUGCCAAU
..(.((..(((...((((.....(((.....)))....))))........((((.....))))...........)))((((..((((((...))))))...))))........)))... ( -34.60)
>consensus
UCGUGCUCGGCCUUGAUCUUCUUAGCACGCAGCUCCUCAAUCUCCUUCAUCAGCUCCAUGCUGUCCUCCACUUCGCCGGCCUCGCCCAGGGCCUCGGCCUUGGCCAACUUCUUGCCAAU
....((..(((...((((.....(((.....)))....))))........((((.....))))...........)))((((..((((((...))))))...))))........)).... (-24.61 = -25.55 +   0.94)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:25:09 2006